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Home / Fall Favorites

Apple Cheesecake Muffins

These wonderful little muffins with a surprise filling of apple cheesecake and crumbly streusel topping are simply irresistible!

Erren Hart

|

last Updated:

03/02/2021
4.80 from 5 votes
Jump to Recipe
Serves: 12
Prep: 20 minutes mins
Cook: 20 minutes mins

A close up of a pile of cheesecake muffins

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This Apple Cheesecake Muffins recipe is divine!  These little beauties are filled with apples as well as a layer of cheesecake.

Apple cheesecake muffins with one muffin cut in half to show the centre
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I really look forward to the fall weather every year.  Not because I don’t like summer, but because I love comfort food and I love to bake with fall flavors.  Apples are on the top of that list.

While browsing my favorite food blog, Cooking Classy I came across her recipe for Caramel Apple Mini Cheesecakes. This inspired me and knew I had to do something with similar flavors!

Why This Recipe Works

  • Cream cheese in the batter brings out the cheesecake flavor.
  • Cinnamon streusel topping adds flavor and texture to these delightful muffins.
  • The brown sugar added to the apples gives a caramel flavor that can’t be beat.

These muffins look complicated, but they really didn’t take me very long at all and really are worth the extra effort. I also have other amazing apple recipes you might like to try like my Caramel Apple Cake. Embrace the fall flavors!

What apples For Apple Cheesecake Muffins?

a varieties of apples on a tray

I like to use Granny Smith and Golden Delicious apples as they tend to hold up best when cooked. Use granny smith if you like a tart flavor and Golden delicious if you prefer a sweeter choice.

How to Make Apple Cheesecake Muffins

  1. Cook the apples.
  2. Make the cheesecake filling.
  3. Prepare the streusel crumb topping.
  4. Layer the ingredients in the. muffin cases.
  5. Bake for 20 to 25 minutes.
  6. Cool, serve, and enjoy!

Step by Step Instructions

Chop the apples and add to the pan along with the sugar, cinnamon and cornflour.

I started with the apple mixture so it wasn’t too hot when I added it to the batter.

chopped apple in a bowl with cinnamon and flour dusted over it

Melt the butter and cook the apple mixture for around 5 minutes.

chopped apple in a pan being stirred with a wooden spoon

Allow to cool.

Make sure you let the apple mixture cool completely before adding to the cheesecake layer.  You don’t want them to combine and turn into a custard.

Make cheesecake filling and the crumb topping.

crumb topping in a blue plastic bowl

Add a small amount of batter to the muffin cases.

muffin batter in cake cases in a cake tin ready to bake

Add the cheesecake mixture and apples.

Apple Cheesecake Muffins batter in a pan with the apple mixture on top, ready to bake

Add more batter, then the crumb topping.Apple Cheesecake Muffins batter topped with the crumb topping

Bake and cool completely.  

apple cheesecake muffins baked and straight out of the oven

This step is important.  I tried these warm (who can blame me) and the filling tasted like custard.  I thought they didn’t work and was ready to scrap them, but that night, my husband tried them cold and said they were fantastic. He was right! You have to give the fillings time to set.  So chill them or let them cool at room temperature for a couple of hours.  It really did make all the difference!

Serve and enjoy!

three apple cheesecake muffins stacked

Other Recipes you’ll love

  • Blueberry Muffins
  • Crumb Cake
  • Award Winning Banana Bread
  • Chocolate Chip Banana Muffins
  • Cornbread Muffins
  • Apple Brown Betty

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A close up of a pile of cheesecake muffins

Recipe

Apple Cheesecake Muffins

These wonderful little muffins with a surprise filling of apple cheesecake and crumbly streusel topping are simply irresistible!
4.80 from 5 votes
Print
Prep Time: 20 minutes mins
Cook Time: 20 minutes mins
Cooling Time: 5 minutes mins
Total Time: 45 minutes mins
Serves 12

Ingredients

  • 1¾ cups all-purpose/plain flour
  • ¾ cup granulated sugar
  • 2 teaspoons baking powder
  • ¼ teaspoon salt
  • 1 egg
  • ½ cup milk
  • 2 ounces cream cheese
  • 4 tablespoons butter (softened)
For the cheesecake mixture:
  • 4 ounces cream cheese
  • ¼ cup granulated sugar
  • 1 egg yolk
  • 1 teaspoon vanilla extract
For the apple mixture:
  • 2 tablespoons orange juice
  • 1 tablespoon butter
  • 2 medium sized cooking apples
  • 2 tablespoons sugar
  • 2 teaspoons cornstarch
  • ¼ teaspoon ground cinnamon
  • pinch of salt
For the topping:
  • ¼ cup butter (melted)
  • ¼ cup granulated sugar
  • ¼ cup all-purpose/plain flour
  • ¼ teaspoon ground cinnamon

Instructions

  • Preheat oven to 375f/190C
  • Line 12 muffin cups in a muffin pan with paper liners.
  • Beat together the sugars, butter, cream cheese and egg until well blended and pale.
  • Stir in the milk and then add the flour, baking powder, and salt until combined.
  • Fill prepared muffin cups about a 1/4 of the way full. Set Aside.
For filling:
  • Peel, core and chop the apples, add them to a small bowl and coat with 1 tablespoon of the juice to keep them from going brown.
  • Add the cornstarch and coat the apples evenly.
  • In a small saucepan on med heat, melt the butter.
  • Add the remaining juice, sugar, salt and cinnamon
  • Add the apples to the melted butter and stir well and cook for 3-5 minutes to soften. If the mixture becomes too thick, add a bit more juice.
  • Remove from heat and set aside.
  • In a small bowl, beat cream cheese, vanilla, sugar and egg yolk until smooth.
  • Drop a rounded tablespoonful into the center of each muffin. Followed by a tablespoon of the apples and then top each one with the remaining batter.
  • Mix together the streusel crumb ingredients and top each muffin evenly.
  • Bake 20 – 25 minutes or until golden brown.
  • Cool on a wire rack for 5 minutes before moving to a cooling rack to cool completely before serving.

Tips

  • You can start by cooking the apple mixture so it isn’t too hot when added to the batter.
  • Make sure you let the apple mixture cool completely before adding it to the cheesecake layer.  You don’t it to combine and turn into a custard.
  • Allow the muffins to cool before eating, they taste so much better when set (when hot the center tastes more custard-like than cheesecake)
Show Nutrition Hide Nutrition

Nutrition

Calories: 324 | Carbohydrates: 44g | Protein: 4g | Fat: 14g | Saturated Fat: 8g | Cholesterol: 69mg | Sodium: 181mg | Potassium: 157mg | Fiber: 1g | Sugar: 27g | Vitamin A: 530IU | Vitamin C: 2.1mg | Calcium: 65mg | Iron: 1.2mg
Created by Erren Hart
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4.80 from 5 votes (2 ratings without comment)

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37 responses

  1. Anna Avatar
    Anna
    10/22/2015

    Hi,

    I have no idea what went wrong, but the batter was like dough and very “doughie” after baking. I think I followed the recipe to a “t”, but it was very difficult to follow. I probably won’t make these again. Are they suppose to be “doughie”.

    Reply
    1. Erren Avatar
      Erren
      10/22/2015

      Hi Anna, because of the cream cheese they are definitely a dense muffin, but I’ve never had them end up doughie. I’m sorry they didn’t work for you.

      Reply
  2. Glenda Funk Avatar
    Glenda Funk
    09/13/2015

    I must be misreading this recipe somehow. It only mentions 4 oz of cream cheese in the filling but none in the batter. Is the other 4 oz incorporated into the batter, then? Maybe it’s too early in the morning to be reading recipes 🙂

    Reply
    1. Erren Avatar
      Erren
      09/13/2015

      Hi Glenda,
      The batter takes 2oz of cream cheese and the filling takes 4oz. Sorry if the recipe wasn’t clear.

      Reply
      1. Glenda Avatar
        Glenda
        09/13/2015

        No worries, I just wanted to make sure I made them with the right ingredients. They look soooo yummy! Thanks, Erren 🙂

      2. Erren Avatar
        Erren
        09/14/2015

        I made them again yesterday. They are a fall favorite around here! 🙂

      3. elliejc Avatar
        elliejc
        10/02/2015

        these look so delicious! how well do you think they would travel? would they be good for 3 days, unrefrigerated, do you think? so glad i found your blog! thanks, erren!

      4. Erren Avatar
        Erren
        10/06/2015

        Hi there, sorry for the late reply. I don’t know how long they would keep for. They go in my house so quickly. I’d guess no more than a couple of days though. Let me know how it goes for you!

  3. Bethany Danielson Avatar
    Bethany Danielson
    09/12/2015

    How much cream cheese is in the batter?

    Reply
    1. Erren Avatar
      Erren
      09/13/2015

      Hi Bethany, the batter takes 2oz of cream cheese and the filling takes 4oz. Sorry if the recipe wasn’t clear. I’ve updated it.

      Reply
  4. Lottie Avatar
    Lottie
    03/25/2015

    Hi Erren, I’ve made these as well as your raspberry jam muffins. They are unbelievably good! I make them all the time and they are a family favorite for breakfast! Thanks so much!

    Reply
  5. Cindy Avatar
    Cindy
    11/10/2014

    Hello Erren, I made these for a brunch over the weekend. They came out beautiful and so yummy! I agree that they should cool completely. I made them a day a head and they were perfect! Thanks for the wonderful recipe!

    Reply
    1. Erren Avatar
      Erren
      11/10/2014

      Thanks so much, Cindy! I am so glad to hear they came out so well for you!

      Reply
  6. Rose Avatar
    Rose
    11/10/2014

    Hi Erren, I made these yesterday and they came out beautiful! Thanks so much for sharing!

    Reply
  7. Frederica Avatar
    Frederica
    11/03/2014

    Dear Erren,

    Would it be possible to make the muffins without the topping? I’m trying to find something to satisfy my sweets cravings but the toppings JUST add those extra calories that makes me go: na-ah too much. It looks absolutely delicious!

    Reply
    1. Erren Avatar
      Erren
      11/04/2014

      Hi Federica, Sure you can make them without the topping if you prefer. Hope you like them!

      Reply
  8. Kathi Cirringione Avatar
    Kathi Cirringione
    10/31/2014

    They came out just fine (although I haven’t tasted them yet)! The ingredients list a tsp. of vanilla extract for the cream cheese and a pinch of salt for the apples, but it’s not mentioned in the instructions. Not a problem for me; I’m a seasoned baker and know how to adjust recipes. I thought it would be helpful to those that don’t bake so much. I did think that 4 apples was a bit too much, and I would have liked to have more batter to top off the muffins with. IF I make them again (a bit labor intensive), I would only use 3 apples and double the batter.

    Reply
    1. Erren Avatar
      Erren
      11/04/2014

      Thank you for letting me know. The apple mixture was meant to be smaller. I copied the wrong thing into the recipe card. It was meant to be halved. I have made the adjustments. So sorry about the error!

      Reply
  9. Kathi Cirringione Avatar
    Kathi Cirringione
    10/31/2014

    Thanks you. That was going to be my guess! Making them now. I’ll let you know how they turn out.

    Reply
    1. Kathi Cirringione Avatar
      Kathi Cirringione
      10/31/2014

      The instructions need to be edited to add the pinch of salt in the apples and the vanilla extract in the cream cheese.

      Reply
  10. Patty Haxton Anderson Avatar
    Patty Haxton Anderson
    10/06/2014

    These muffins look so delicious and I am sad I don’t have one.

    Reply
    1. Erren Avatar
      Erren
      10/08/2014

      Thanks so much PattY! 🙂

      Reply
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